I am a new user and I have a question about the Cut-off score setting in the library building for a DIA analysis.
I processed the data on PEAKS applying 1% FDR and I exported the file for Skyline. In the ion library building process in Skyline, I set the Cut-off score equal to 0, not to apply a double filter on my peptides (I don't want to cut 1% of the file where I already cut 1%). Do you think it could be a problem?
Thanks in advance!
Mauro